The Molecular Graphics Laboratory Forum

I have just installed MGLTools-1.5.4 on a new installation of openSUSE 12.1 on a 64bit AMD CPU with 3MB of ram.

When I attempt to run ADT I get an out of memory error:

computation@linux-iq76:/sdc3/applications/AutoDock/MGLTools-1.5.4/bin> ./adt
setting PYTHONHOME environment
Run AutoDockTools from /sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/AutoDockTools
Resource file used to customize PMV: /home/computation/.mgltools/1.5.4/Pmv/_pmvrc
Traceback (most recent call last):
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/AutoDockTools/__init__.py", line 373, in runADT
title=title, withShell= not interactive, verbose=False)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/Pmv/moleculeViewer.py", line 315, in __init__
verbose=verbose, trapExceptions=trapExceptions)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/ViewerFramework/VF.py", line 345, in __init__
verbose=verbose)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/ViewerFramework/VFGUI.py", line 277, in __init__
cnf = {"addScenarioButton": False})
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Viewer.py", line 587, in __init__
c = apply(Viewer.AddCamera, (self, master, screenName,classCamera), kw)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Viewer.py", line 278, in AddCamera
c = apply( classCamera, (master, screenName, self, len(self.cameras)), kw)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Camera.py", line 4806, in __init__
check, cnf), **kw)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Camera.py", line 1609, in __init__
isIntelOpenGL = GL.glGetString(GL.GL_VENDOR).find('Intel') >= 0
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/opengltk/exception.py", line 44, in processglerror
raise apply( GLerror, errs)
GLerror: out of memory
hit enter to continue
computation@linux-iq76:/sdc3/applications/AutoDock/MGLTools-1.5.4/bin>

The same thing happens when I attempt running PMV:


computation@linux-iq76:/sdc3/applications/AutoDock/MGLTools-1.5.4/bin> ./pmv
setting PYTHONHOME environment
Run PMV from /sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/Pmv
Resource file used to customize PMV: /home/computation/.mgltools/1.5.4/Pmv/_pmvrc
Traceback (most recent call last):
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/Pmv/__init__.py", line 371, in runPmv
title=title, withShell= not interactive, verbose=False, gui=gui)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/Pmv/moleculeViewer.py", line 315, in __init__
verbose=verbose, trapExceptions=trapExceptions)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/ViewerFramework/VF.py", line 345, in __init__
verbose=verbose)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/ViewerFramework/VFGUI.py", line 277, in __init__
cnf = {"addScenarioButton": False})
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Viewer.py", line 587, in __init__
c = apply(Viewer.AddCamera, (self, master, screenName,classCamera), kw)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Viewer.py", line 278, in AddCamera
c = apply( classCamera, (master, screenName, self, len(self.cameras)), kw)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Camera.py", line 4806, in __init__
check, cnf), **kw)
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/DejaVu/Camera.py", line 1609, in __init__
isIntelOpenGL = GL.glGetString(GL.GL_VENDOR).find('Intel') >= 0
File "/sdc3/applications/AutoDock/MGLTools-1.5.4/MGLToolsPckgs/opengltk/exception.py", line 44, in processglerror
raise apply( GLerror, errs)
GLerror: out of memory

Please include this Traceback in your bug report.

hit enter to continue
computation@linux-iq76:/sdc3/applications/AutoDock/MGLTools-1.5.4/bin>


However, Vision runs.

Please advise

Thanks in advance.

Hi,

not sure what the problem can be but it seems to be related to OpenGL. Does this machine have a decent graphic card?
In any case, try the latest RC and see if the problem is still there.

Stefano

Hi, I am also facing same Problem...I need also help.

Hi,

go to this post and see if the proposed solution works for you.

Stefano

Hi,

I have the same issue


setting PYTHONHOME environment
Run ADT from /home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/AutoDockTools
Resource file used to customize PMV: /home/carlos/.mgltools/1.5.6rc3/Pmv/_pmvrc
Traceback (most recent call last):
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/AutoDockTools/__init__.py", line 433, in runADT
title=title, withShell= not interactive, verbose=False, gui=gui)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/Pmv/moleculeViewer.py", line 834, in __init__
trapExceptions=trapExceptions)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/ViewerFramework/VF.py", line 372, in __init__
verbose=verbose)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/ViewerFramework/VFGUI.py", line 360, in __init__
verbose=verbose,guiMaster=VIEWER_root,)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/DejaVu/Viewer.py", line 574, in __init__
c = apply(Viewer.AddCamera, (self, master, screenName,classCamera), kw)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/DejaVu/Viewer.py", line 282, in AddCamera
c = apply( classCamera, (master, screenName, self, len(self.cameras)), kw)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/DejaVu/Camera.py", line 5956, in __init__
check, cnf), **kw)
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/DejaVu/Camera.py", line 1911, in __init__
isIntelOpenGL = GL.glGetString(GL.GL_VENDOR).find('Intel') >= 0
File "/home/carlos/MGLTools-1.5.6rc3/MGLToolsPckgs/opengltk/exception.py", line 44, in processglerror
raise apply( GLerror, errs)
GLerror: out of memory
hit enter to continue


How can I fix it?

Humbly,

Hi,

do you get this error when startng ADT or after some time of usage?

Stefano

I got this error when starting ADT!! I got the same message in my Fedora and OpenSUSE 64 bit systems

It's hard to say what is the cause of the problem.
Which graphic card are using?

Stefano

I use a ATI FirePro 3750